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* CarpetIOHDF5: Adapt to region_t changesErik Schnetter2007-01-12
| | | | | | | | Adapt to region_t changes. Use the type region_t instead of gridstructure_t. This is an incompatible change to the format of HDF5 files. darcs-hash:20070112223732-dae7b-9f2527492cffa6f929a9dd32604713267621d7fb.gz
* CarpetIOHDF5: Do not use "map" as local variable nameErik Schnetter2007-01-12
| | | | | | | | Use "m" instead of "map" as local variable name. Remove "Carpet::" qualifier in front of variable "maps". darcs-hash:20070112224022-dae7b-0c5241b73c1f4a8ff4722e04bc70ed047d6158da.gz
* CarpetIOHDF5: support per-variable output compression levelsThomas Radke2006-11-17
| | | | | | | | | | | | | | | | | Implement variable-specific output request option 'compression_level' so that users can specify eg. IOHDF5::compression_level = 1 IOHDF5::out_vars = "admbase::metric admconstraints::hamiltonian admbase::lapse{ compression_level = 0 }" to request HDF5 dataset compression for every output variable except for the lapse. This modification also requires an update of thorn CactusBase/IOUtil. darcs-hash:20061117132206-776a0-0e1d07a85cf206fa262a94fd0dd63c6f27e50fa2.gz
* CarpetIOHDF5: support automatic gzip dataset compressionThomas Radke2006-11-17
| | | | | | | | | With the new steerable integer parameter IOHDF5::compression_level users can now request gzip dataset compression while writing HDF5 files: levels from 1-9 specify a specific compression rate, 0 (which is the default) disables dataset compression. darcs-hash:20061117115153-776a0-7aaead5d2a0216841a27e091fddb9b6c4f40eed4.gz
* CarpetIOHDF5: hdf5toascii_slicer now also provides 0D and 3D outputThomas Radke2006-10-05
| | | | darcs-hash:20061005133135-776a0-1550cde9db6e0a375b661b2ab6b0ed9c762bbe9d.gz
* CarpetIOHDF5: use aliased function Coord_GroupSystem() only optionallyThomas Radke2006-10-04
| | | | | | | If no thorn provided this aliased function, CarpetIOHDF5 assumes that no coordinate information is available. darcs-hash:20061004144616-776a0-00da12cca7d6b6ad1ae0a38a96923f771239de79.gz
* CarpetIOHDF5: Use new regridding API when recoveringErik Schnetter2006-09-25
| | | | darcs-hash:20060925220348-dae7b-303594fd2b999c93d2b816a9d3f11d0d97e391c2.gz
* CarpetIOHDF5: Cast size_t to int explicitlyErik Schnetter2006-09-25
| | | | darcs-hash:20060925220323-dae7b-040ddfb0afc83c15cd4802fe26fe4822826a2e8a.gz
* CarpetIOHDF5: Save grid structure in the output filesErik Schnetter2006-09-25
| | | | | | | Save grid structure in the output files whenever the parameters are saved, even when it is not a checkpoint file. darcs-hash:20060925220235-dae7b-09e23cc6ec48e20df0b560356f19648a67e955dd.gz
* CarpetIOHDF5: Add missing #include <cstring>Erik Schnetter2006-09-25
| | | | darcs-hash:20060925220415-dae7b-2b72aef51ae3d8b056b18221acd9989668a2864d.gz
* CarpetIOHDF5: fix filereader testsuiteThomas Radke2006-09-15
| | | | | | | | | | | | | | | Update the filereader testsuite so that it passes again, also on multiple processors. Added output of more norms for comparison. The testsuite was broken because its norms output files had been created by CactusBase/IOBasic. Temporarily going back to using that I/O thorn verified that the testsuite still gave the same results. After updating the parfile to use Carpet's scalar output method, both the output filenames changed (hence the removing of old output files and adding new ones) as well as their data contents - the latter due to CarpetIOScalar calling CCTK_Reduce() in global mode and CactusBase/IOBasic calling it in level mode. darcs-hash:20060915115726-776a0-dbf8ce75815a6e302b90dbd799c1e0e56274da43.gz
* CarpetIOHDF5: fix testsuites so that they use proper nesting of gridsThomas Radke2006-09-11
| | | | | | | | | | | | | Doubled Driver::global_nsize in order to get the grids properly nested. This requires an update of the checkpoint and all output files. While both CarpetWaveToyRecover_test_[14]proc testsuites continue to work the CarpetWaveToyNewRecover_test_1proc is still broken, although it should give exactly the same results as CarpetWaveToyRecover_test_1proc. It needs to be investigated that IOHDF5::use_reflevels_from_checkpoint really works as expected. darcs-hash:20060911164811-776a0-70a5d06de9506fa4ea68672ed5776c0b236546d0.gz
* CarpetIOHDF5: get both CarpetWaveToyRecover_test_[14]proc testsuites working ↵Thomas Radke2006-09-11
| | | | | | | | | | | | | | | | | again This patch partially undoes patch 'CarpetIOHDF5: Add test case for grid structure recovery' (recorded Mon May 8 21:46:21 CEST 2006) by * renewing the checkpoint file (containing same data as before above's patch, now with grid structure added) * fixing the 1D output files (by removing comment lines which aren't output anymore by CarpetIOASCII) It leaves the CarpetWaveToyNewRecover_test_1proc testsuite unchanged, ie. broken as it was from the beginning. darcs-hash:20060911160325-776a0-5339d1271436f39e6d9c2fc55e136bcbf9f5fe4e.gz
* CarpetIOHDF5: added new option '--match <regex string>' in hdf5toascii_slicerThomas Radke2006-09-01
| | | | | | | | | | | | ../exe/wave/hdf5toascii_slicer [--match <regex string>] ... where [--match <regex string>] selects HDF5 datasets by their names matching a regex string using POSIX Extended Regular Expression syntax darcs-hash:20060901085302-776a0-3a9cfb71f9008b1a7bf93d9857195f92b67f1e25.gz
* CarpetIOHDF5: add support for integer datasets in hdf5toascii_slicerThomas Radke2006-08-31
| | | | darcs-hash:20060831174548-776a0-bf352f210d8736f48a666654309f0ad3443cf3a3.gz
* CarpetIOHDF5: hdf5toascii_slicer now allows 1D line extraction from 3D HDF5 ↵Thomas Radke2006-08-28
| | | | | | files darcs-hash:20060828173429-776a0-b231124b73645983b8ed56efa35d5ec2c9354add.gz
* CarpetIOHDF5: clarify documentation on chunked vs unchunked outputJonathan Thornburg2006-08-22
| | | | darcs-hash:20060822160245-b0a3f-a52dbe5f5276995324eade2d0648af4e1388c964.gz
* CarpetIOHDF5: more clearly describe in the thorn documentation what chunked ↵Thomas Radke2006-08-22
| | | | | | and unchunked HDF5 output means darcs-hash:20060822153832-776a0-73ab7e8afc9dd02bfeea6269e7d21f2cdb0c7357.gz
* CarpetIOHDF5: correct URL for Cactus viztoolsJonathan Thornburg2006-08-22
| | | | darcs-hash:20060822144417-b0a3f-a1053a60b369e646b2dba3d0470cc4196d64de0e.gz
* CarpetIOHDF5: point to more docs on hdf5toascii_slicer programJonathan Thornburg2006-08-22
| | | | darcs-hash:20060822143002-b0a3f-d2a21d30f28261ad7248cf44a5928b2a38be9b68.gz
* CarpetIOHDF5: make hdf5toascii_slicer --help output more informativeJonathan Thornburg2006-08-22
| | | | | | | Clarify an ambiguity in the --help output: timestep selection is by cctk_time value, not by cctk_iteration darcs-hash:20060822142353-b0a3f-e0ad1ea0e2f4eca7038fc2d77b0ff3d724b97aab.gz
* CarpetIOHDF5: add missing #include to hdf5toascii_slicer utilityJonathan Thornburg2006-08-22
| | | | | | Adds a missing #include <cmath> so std::fabs() can be used darcs-hash:20060822114437-b0a3f-f85a976d02c36aa6311c7b6916aad107747954b2.gz
* CarpetIOHDF5: add timestep selection to hdf5toascii_slicer utilityThomas Radke2006-08-21
| | | | | | | The new command line parameter option '--timestep <timestep>' allows users to select an individual timestep in an HDF5 file. darcs-hash:20060821200601-776a0-8e977e93014eded2d6f6cab376209ce7d4293b94.gz
* CarpetIOHDF5: fix g++ compiler error and warnings in hdf5toascii_slicer.ccThomas Radke2006-08-21
| | | | | | | | While Intel C++ (9.0) had no problems compiling hdf5toascii_slicer.cc at all, GNU C++ generates an error when assigning -424242424242 to a long int. Also fixed some other things that g++ warns about. darcs-hash:20060821094951-776a0-84d68b511de0bbd65b212755d699a415779c9674.gz
* CarpetIOHDF5: #include <algorithm> in hdf5toascii_slicer.cc because sort() ↵Erik Schnetter2006-08-17
| | | | | | is used darcs-hash:20060817173012-dae7b-857f1313b12144e1ba997d029990a0464bb36df5.gz
* CarpetIOHDF5: added make.configuration.deps with rules to build utility programsThomas Radke2006-08-14
| | | | darcs-hash:20060814142824-776a0-1553d2404adc099fea75b546d4169f184dc5d3ab.gz
* CarpetIOHDF5: list the options in an option string supported by CarpetIOHDF5Thomas Radke2006-08-14
| | | | darcs-hash:20060814121029-776a0-279fb0650475bb7a3f53bc74124a42c951c2aa10.gz
* CarpetIOHDF5: document utility programs for CarpetIOHDF5 data processingThomas Radke2006-08-08
| | | | darcs-hash:20060808143907-776a0-965984d0fe8688c51fe0a5d9bf8d1dfd51a3eb8a.gz
* CarpetIOHDF5: added utility program hdf5toascii_slicerThomas Radke2006-08-08
| | | | | | | This utility program extracts 2D slices from CarpetIOHDF5 output files and prints them to stdout in CarpetIOASCII format. darcs-hash:20060808123300-776a0-4088993ec64ad291510977ee5c10d521863ef2ac.gz
* CarpetIOHDF5: fix bug in deletion of recovery fileThomas Radke2006-06-26
| | | | | | | | | | | Due to bug in my previous patch, the logic for removing the checkpoint file after successful recovery was wrong: it was removed if IO::recover_and_remove was set to "false". This patch fixes this bug by reversing the logic. Thanks to Ian Hinder for noticing this and presenting the fix. darcs-hash:20060626162548-776a0-8d3ebc0c43a74cb3faa892aa2a410e13bb37825e.gz
* CarpetIOHDF5: Remove unused local variableErik Schnetter2006-06-13
| | | | darcs-hash:20060613171412-dae7b-cf8a7c6112d6c364bd7f4e7568e0df2c683c01f3.gz
* CarpetIOHDF5: evaluate IO::recover_and_remove parameterThomas Radke2006-06-07
| | | | | | | If IO::recover_and_remove is set, the recovery file will also be removed after IO::checkpoint_keep successful checkpoints have been written. darcs-hash:20060607102431-776a0-92edd93f6dc004ab824b237fbd03ee732f7a3841.gz
* CarpetIOHDF5: don't try to recover variables in groups which have no grid ↵Thomas Radke2006-05-12
| | | | | | points (zero size) darcs-hash:20060512115514-776a0-dba29d6e31a12d4cff6772e69bd1ef54e3aa2d8b.gz
* CarpetIOHDF5: fix the HDF5 library version test when determining the ↵Thomas Radke2006-05-11
| | | | | | | | | datatype for H5Sselect_hyperslab() arguments This patch lets you compile CarpetIOHDF5 also with HDF5-1.8.x (and future versions). darcs-hash:20060511172957-776a0-acbc1bd6b8d92223c0b52a43babf394c0ab9b0f4.gz
* CarpetIOHDF5: Delay check whether storage is enabledErik Schnetter2006-05-11
| | | | | | | Check whether a group has storage only after checking whether it should be output. darcs-hash:20060511203215-dae7b-20604fda3117034cccf38998561b7e3bed1e6873.gz
* CarpetIOHDF5: Add test case for grid structure recoveryErik Schnetter2006-05-08
| | | | darcs-hash:20060508194621-dae7b-3094a05a1414c3ba19a0661a03d78102417a918b.gz
* CarpetIOHDF5: Correct handling of "use_grid_structure_from_checkpoint"Erik Schnetter2006-05-08
| | | | | | | Correct errors in the handling of the parameter "use_grid_structure_from_checkpoint". darcs-hash:20060508193609-dae7b-c5cf907171eb31e8298669cf4bd4aa03f2c79429.gz
* CarpetIOHDF5: Add parameter "use_grid_structure_from_checkpoint"Erik Schnetter2006-04-13
| | | | | | | | | | | Add a parameter "use_grid_structure_from_checkpoint" that reads the grid structure from the checkpoint file, and sets up the Carpet grid hierarchy accordingly. The Carpet grid hierarchy is written unconditionally to all checkpoint files. darcs-hash:20060413202124-dae7b-f97e6aac2267ebc5f5e3867cbf78ca52bbd33016.gz
* CarpetIOHDF5: Clean up param.cclErik Schnetter2006-04-13
| | | | darcs-hash:20060413201901-dae7b-89acfa2956a3a82957ec6a4282a5051685ee5252.gz
* CarpetIOHDF5: better optimisation during recoveryThomas Radke2006-02-17
| | | | | | | | | When recovering from a checkpoint, each processor now continuously reads through all chunked files until all grid variables on this processor have been fully recovered. This should always minimise the number of individual checkpoint files necessary to open on each processor. darcs-hash:20060217160928-776a0-28c076749861c0b26d1c41a6f4ef3bdb00c23274.gz
* CarpetIOHDF5: more efficient recovery with same number of processorsThomas Radke2006-02-12
| | | | | | | | This patch introduces some optimisation for the case when recovering with the same number of processors as used during the checkpoint: each processor opens only its own chunked file and reads its metadata, skipping all others. darcs-hash:20060212200032-776a0-3dd501d20b8efb66faa715b401038218bb388b4f.gz
* CarpetIOHDF5: fix small memory leak in HDF5 outputThomas Radke2006-02-12
| | | | | | While outputting dataset attributes, an HDF5 dataspace wasn't closed properly. darcs-hash:20060212143008-776a0-41e46c61bce2dc22fbfc7093d2ad776bfae00687.gz
* CarpetIOHDF5: fix declaration of scheduled routineThomas Radke2006-02-09
| | | | | | | | | | | | The scheduled routine CarpetIOHDF5_CloseFiles() was declared to return an int and take no arguments. Instead it must be declared to take a 'const cGH* const' argument. It should also return void. See http://www.cactuscode.org/old/pipermail/developers/2006-February/001656.html. This patch also fixes a couple of g++ warning about signed-unsigned integer comparisons. darcs-hash:20060209165534-776a0-24101ebd8c09cea0a9af04acc48f8e2aa2961e34.gz
* CarpetIOHDF5: update the testsuitesThomas Radke2006-02-06
| | | | | | | The checkpoint/recovery testsuite now uses a tarball which does not contain the old I/O parameters anymore. All parameter files now use CarpetIOBasic and CarpetIOScalar as a replacement for CactusBase/IOBasic. This modification also required an update of various output files. darcs-hash:20060206190059-776a0-1c88d51f696442a15fd4c3182af23f9c9a5d5048.gz
* CarpetIOHDF5: remove deprecated I/O parametersThomas Radke2006-02-06
| | | | | | | | | | | This patch finally closes the long-standing issue of keeping both old and new CarpetIOHDF5 parameters around. Now the old parameters have been removed, only the new ones can be used further on. If you still have old-style parameter files, you must convert them now. The perl script CarpetIOHDF5/srcutil/SubstituteDeprecatedParameters.pl does that for you automatically. darcs-hash:20060206184519-776a0-29d9d612e011dda4bf2b6054cee73546beae373a.gz
* CarpetIOHDF5: bugfix for writing checkpointsThomas Radke2006-02-06
| | | | | | | | Accumulate any low-level errors returned by HDF5 library calls and check them after writing a checkpoint. Do not remove an existing checkpoint if there were any low-level errors in generating the previous one. darcs-hash:20060206183846-776a0-549e715d7a3fceafe70678aaf1329052dce724bb.gz
* CarpetIOHDF5: fix warnings about incompletely read variablesThomas Radke2006-02-01
| | | | | | | | When the filereader was used, CarpetIOHDF5 still checked all grid variables whether they had been read completely from a datafile, even those which weren't even specified in the IO::filereader_ID_vars parameter. darcs-hash:20060201174945-776a0-faa9fe295ef273ffd38308bbda7fde092503513c.gz
* CarpetIOHDF5: raise the warning level from 2 (COMPLAIN) to 1 (ALERT) for ↵Thomas Radke2006-01-27
| | | | | | warnings about the use of deprecated I/O parameters darcs-hash:20060127164814-776a0-89f59f04f6118191ba7a965cf72e3c6c548c817d.gz
* CarpetIOHDF5: fix recovery of multiple map grid variablesThomas Radke2006-01-20
| | | | | | | | | | | The recovery code didn't properly recover grid functions with multiple maps: all maps were initialised with the data from map 0. This patch fixes the problem so that checkpointing/recovery should work now also for multipatch applications. The patch only affects recovery code, meaning it will also work with older checkpoint files. darcs-hash:20060120164515-776a0-68f93cb5fb197f805beedfdc176fd8da9b7bfc49.gz
* CarpetIOHDF5: Close checkpoint files in meta modeErik Schnetter2005-11-19
| | | | darcs-hash:20051119212845-dae7b-2ca10604822dbe488f621a9dcf039fe055c6d8dc.gz
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